Genome-Wide Identification and Characterization of the UBP Gene Family in Moso Bamboo (Phyllostachys edulis)

Wu, Ruihua; Shi, Yanrong; Zhang, Qian; Zheng, Wenqing; Chen, Shaoliang; Du, Liang; Lu, Cunfu

doi:10.3390/ijms20174309

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Genome-Wide Identification and Characterization of the UBP Gene Family in Moso Bamboo (Phyllostachys edulis)

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Cunfu Lu

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Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing 100083, China

College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China

Authors to whom correspondence should be addressed.

Int. J. Mol. Sci. 2019, 20(17), 4309; https://doi.org/10.3390/ijms20174309

Received: 23 July 2019 / Revised: 25 August 2019 / Accepted: 29 August 2019 / Published: 3 September 2019

(This article belongs to the Section Molecular Genetics and Genomics)

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Abstract

The largest group of deubiquitinases—ubiquitin-specific proteases (UBPs)—perform extensive and significant roles in plants, including the regulation of development and stress responses. A comprehensive analysis of UBP genes has been performed in Arabidopsis thaliana, but no systematic study has been conducted in moso bamboo (Phyllostachys edulis). In this study, the genome-wide identification, classification, gene, protein, promoter region characterization, divergence time, and expression pattern analyses of the UBPs in moso bamboo were conducted. In total, 48 putative UBP genes were identified in moso bamboo, which were divided into 14 distinct subfamilies in accordance with a comparative phylogenetic analysis using 132 full-length protein sequences, including 48, 27, 25, and 32 sequences from moso bamboo, A. thaliana, rice (Oryza sativa), and purple false brome (Brachypodium distachyon), respectively. Analyses of the evolutionary patterns and divergence levels revealed that the PeUBP genes experienced a duplication event approximately 15 million years ago and that the divergence between PeUBP and OsUBP occurred approximately 27 million years ago. Additionally, several PeUBP members were significantly upregulated under abscisic acid, methyl jasmonate, and salicylic acid treatments, indicating their potential roles in abiotic stress responses in plants. View Full-Text

Keywords: moso bamboo; UBP genes; phylogenetic analysis; conserved motif; expression patterns

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MDPI and ACS Style

Wu, R.; Shi, Y.; Zhang, Q.; Zheng, W.; Chen, S.; Du, L.; Lu, C. Genome-Wide Identification and Characterization of the UBP Gene Family in Moso Bamboo (Phyllostachys edulis). Int. J. Mol. Sci. 2019, 20, 4309. https://doi.org/10.3390/ijms20174309

AMA Style

Wu R, Shi Y, Zhang Q, Zheng W, Chen S, Du L, Lu C. Genome-Wide Identification and Characterization of the UBP Gene Family in Moso Bamboo (Phyllostachys edulis). International Journal of Molecular Sciences. 2019; 20(17):4309. https://doi.org/10.3390/ijms20174309

Chicago/Turabian Style

Wu, Ruihua, Yanrong Shi, Qian Zhang, Wenqing Zheng, Shaoliang Chen, Liang Du, and Cunfu Lu. 2019. "Genome-Wide Identification and Characterization of the UBP Gene Family in Moso Bamboo (Phyllostachys edulis)" International Journal of Molecular Sciences 20, no. 17: 4309. https://doi.org/10.3390/ijms20174309

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Genome-Wide Identification and Characterization of the UBP Gene Family in Moso Bamboo (Phyllostachys edulis)

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